<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Detailed information on MDP31385

Description Mediator of RNA polymerase II transcription subunit 13
SequenceMSSSFVSNGASLEDCHCNLFCLADLTGIKWKRYVWQGPTSAPILFPVTEEDPILSSFSRCLKADVLGVWRRDQRPGRRELWIFWWGKDPNFADLIHHDLSEEEDGVWENGLSYECRTLLFKAVHNLLERCLMNRNFVRIGKWFVKPYEKDEKPINKSEHLSCSFTFFLHGDSNVCTSVEINQHQPVYLLSEEHVTLAQQSNSPFQVILSPFGLNGTLTGQAFKMSDSATKKLIGEWKQFYPISCGLKEMSEEKQDDMDWEDDSLAAVEVLVAGVRMIYPACFVLVPQSDIPAPSSVGASHCSASCLGIHQVPASTRDPAMSSVTLTPPTSPEEVQTVDPQSAQKWVKFSSVSDGFSTDSTSHHGGKIPRKLANHVVDRVWQECNMNRLQNKRKYSATSSGLCEEETADKIGCWDFVEATQRTSCSCLRHKSLKTRNTGQQGQAPSLGQQQQVLPKHKTNEKQDKSEKPQKRPLTPFHHRVSVSDEIGMDTDSASQRLVISAADSQVRFSNIRTNDVAKTPQMHGTELANSPQPPPLSPHPCDVVDEGVTKTPSTPQSQHFYQMPTPDPLVPTKPMEDRIDSLSQSFPPPFQEAVEPTVYVGTAVSLEEDEANVAWKYYKVPKKKDVEFLPPQLPNDKFKDDPVGPFGQESVTSVTELMVQCKKPLKVSDEIVQQYQIKNQYLSAIASDTEQEPKIDPYAFVEGDEEFIFTDKKDRQNSEREAGKKHKVEDGTSAVTVLSHEEDAMSLFSPSKQDAPRPTNHARPPSTSLIYDSDLAVSYTDLDNLFNSDEDELTPGSKKSASGSDDKASSKESKTGNLDPLSCISTADLHKMYPTPPSLEQHIMGFSPMNMNNKEYGSVDTAPGGTVLEGNSSSVGTQFRIEVEEGFCSPKPSEIKDFSYVYKPENCQVLVGCSMFAPLKTLPSHCLPPIKLPEECVYRQSWTVGKLDLLPSGPSMPFIKEGDGSNLDQDYGPAYTPQTHASFGMPPSSAPPSNGGAGILPSPSTPRFPTPRTPRTPRTPRGAGGPASAQGSVKYENSDLYSPASTPSTCRPLNSVEPATVPSIPEAHSLYVNLILSESVMNLFKDCNFDSCCICVCNMNIKGADVGVYIPDPTQEAQYRCTCGFSAVMNRKFGNNSGLFLEDELDIIGRNTDCGKEAEKRFEALRASSVENVNGGLKESEKVPDELILLLQDQCTNLFSPFGAADQDPFPKVGISSNWVRVEERDCCSDCCLALEHGRQFMDNMSGGKVDEALVRSSCLHPWAKQNDASVQCSQDILRMLLSLQPVLQDAIQKKRTVRPWGVQGPLTWQQFHKMAGRGSYGTDESPEPLPIPTFLLGYDYDFLVLSPFALPYWEKLMLEPYGSQRDIAYVVLCPENEALLNGARSFFRDLTAIYESCRLGQHRPISRLLTDGIMKVGATASKKLSEKFVTEWFSQAADGNNEAFSKLKLYAQVCRYDLGPYLASQPLDSSLLSQPNLVAPPNQSLVTAPQMTNTGNANAPSATLASAASSTMTMTSGVPISTSVATANSTLTTTSSSSSSSLSSGVSSNKLPSFPPFGSMNTSGTGSMSAQASTVQSGQLGGQQSSSLQAAGISGESASLPTQPHPDVSESTMDRDKVGIPTDGDSHAITYPPAIVVYIIDPFTYENKDESTNSSNVWTLGLLRCFLEMVQTLPPHIKSTVSVQIVPCQYLLQPVKHDDRQIYSQHLKSLAFSVFTQCRRPLPTSTNVKTLTGFGPGLAMETALKSPDRPECIRLYTPPFILAPVKDKQTELGETFGEAGQKYNVLFVGYCLSHDQRWILASCTDLYGELLETCIINIDVPNRARRKKGSARRFGLQKLWEWCLGLVQMSSLPWRVVIGRLGRIGHGELKDWSCLLSRRNLQSLSKRLKDMCRMCGISAADSPSILSACLVAMEPQGSFVIMPDSVSTGSVFGRSTTLNMQTPQLNTPQDTSCTHILVFPTSASVQVASATYTTENLDLAFNPNNDGADGMGIFDLLDTGDDLDPDIINILPASPTASPVHSPGSHYPHGGDAGKGQGTDRLLSTESHDEVTNILQQPLALGYFVSTAKAGPLPDWFWSACPQAQYQCPLFLKASLHLHVPSVQSDELLHSKHSHPLDSNQTSDVLRFVLEQYNALSWLTCDPAVQDRRSCLPVHFVVLNQLYNFIMNML
Length2171
PositionMiddle
OrganismMus musculus (Mouse)
KingdomMetazoa
LineageEukaryota> Metazoa> Chordata> Craniata> Vertebrata> Euteleostomi> Mammalia> Eutheria> Euarchontoglires> Glires> Rodentia> Myomorpha> Muroidea> Muridae> Murinae> Mus> Mus.
Aromaticity0.08
Grand average of hydropathy-0.388
Instability index52.59
Isoelectric point5.42
Molecular weight238588.40
Publications
PubMed=19468303
PubMed=16141072
PubMed=14621295
PubMed=21183079

Function

Annotated function Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene- specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors (By similarity). 
GO - Cellular Component
mediator complex	GO:0016592	IDA:MGI
nucleoplasm	GO:0005654	ISO:MGI
nucleus	GO:0005634	ISO:MGI

GO - Biological Function
thyroid hormone receptor binding	GO:0046966	ISO:MGI
transcription coactivator activity	GO:0003713	ISO:MGI
transcription coregulator activity	GO:0003712	ISO:MGI

GO - Biological Process
cholesterol homeostasis	GO:0042632	IDA:BHF-UCL
negative regulation of DNA-binding transcription factor activity	GO:0043433	IDA:BHF-UCL
positive regulation of transcription by RNA polymerase II	GO:0045944	ISO:MGI
positive regulation of transcription initiation from RNA polymerase II promoter	GO:0060261	ISO:MGI
positive regulation of transcription, DNA-templated	GO:0045893	ISO:MGI
regulation of transcription by RNA polymerase II	GO:0006357	IBA:GO_Central
triglyceride homeostasis	GO:0070328	IDA:BHF-UCL









Interaction





Binary Interactions











Repeat regions





Repeats

>MDP31385
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No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             4|     911.68|     222|     251|     517|     764|       1
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  182-  344 (141.35/56.32)	...........................................QHQPVYLLSEEHVT....LAQQSN..SPFQ.V...ILS.....PFGL.NGTLTGQAfkmS...DSATKKLIGEwkqfYPISCGLKE.MSEEKQDDMDWE.........DD.SLAAVEVLvagvRMIYPACFVLVP.QSDIP.APSSvgashcsasclgiHQVP.................................asTRDPAMSSVTLT.....PP..TSPEEVQTVDpQSAQK................................................
  345-  590 (293.46/132.42)	WVKfSSVS................................DGFSTDSTSHHGGK.........IPRK..LANH.VVDRVWQecnmnRLQNKRKY.SATS...SglcEEETADKIGC....WDFVEATQRTSCSCLRHKSLKTRNTGQQGQAPSlGQQQQVLP....KHKTNEKQDKSEKPQKRPlTPFH.............HRVSvsdeigmdtdsasqrlvisaadsqvrfsnirtndvAKTPQMHGTELANSPQPPP..LSPHPCDVVD.EGVTKTPSTPQS..QH...FYQMPTPDP...LVPTKPMEDRIDSLSQSFPPPF
  599-  879 (313.05/176.58)	YVG.TAVSleedeanvawkyykvpkKKDVE..FLPPQlPNDKFKDDPVGPFGQESVTSVTELMVQCK..KPLK.VSDEIVQ.....QYQIKNQYLSAIA...S...DTEQEPKIDP....YAFVEGDEEFIFTDKKDRQNSEREAGKKHKVED.GTSAVTVL....SHEEDAMSLFSPSKQDAP.RPTN.............HARP...pstsliydsdlavsytdldnlfnsdedeltpgSKKSASGSDDKASSKESKTgnLDPLSC.IST.ADLHKMYPTPPSleQHimgFSPMNMNNKeygSVDTAPGGTVLEGNSSSVGTQF
  880- 1007 (163.82/67.53)	.........................RIEVEegFCSPK.PSE.IKD.....FSYVYKPENCQVLVGCSmfAPLKtLPSHCLP.....PIKLPEE...CVY...R...QSWTVGKLD.......LLPSGPSMPFIKEGDGSNLDQDYG...........................................................P...................................AYTPQTH....ASFGMPPS..SAP.PSN.GG.AGILPSPSTPR..........................................
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|      82.96|      17|      18|    1501|    1517|       2
---------------------------------------------------------------------------
 1482- 1498 (28.06/16.26)	PNQSLVTAPQMTNTGNA
 1501- 1517 (28.10/16.29)	PSATLASAASSTMTMTS
 1520- 1536 (26.80/15.16)	PISTSVATANSTLTTTS
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      55.10|      14|      27|    1830|    1843|       3
---------------------------------------------------------------------------
 1830- 1843 (27.87/18.29)	GSARRFGLQKLWEW
 1860- 1873 (27.23/17.68)	GRLGRIGHGELKDW
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      46.22|      14|      27|    1539|    1552|       4
---------------------------------------------------------------------------
 1539- 1552 (22.51/11.74)	SSSSLSSGVSSNKL
 1568- 1581 (23.72/12.79)	SMSAQASTVQSGQL
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|      84.94|      26|      30|    1013|    1041|       5
---------------------------------------------------------------------------
 1013- 1041 (35.47/31.30)	TPRTPRtPRGAGGPASAQgSVKyENSDLY
 1046- 1071 (49.48/27.20)	TPSTCR.PLNSVEPATVP.SIP.EAHSLY
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     154.30|      46|     350|    1676|    1724|       6
---------------------------------------------------------------------------
 1676- 1724 (76.59/53.97)	PHIKSTVSVQivPCQYLLQPVKHDD.RQIYSQHLkSLAFSVFTQCRRPLP
 2029- 2075 (77.71/45.25)	PHGGDAGKGQ..GTDRLLSTESHDEvTNILQQPL.ALGYFVSTAKAGPLP
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             2|     101.61|      29|      30|    1099|    1127|       7
---------------------------------------------------------------------------
 1099- 1127 (54.97/35.40)	MNIK.GADVGVYIPDPTQEAQYRCTCGFSA
 1129- 1158 (46.64/28.81)	MNRKfGNNSGLFLEDELDIIGRNTDCGKEA
---------------------------------------------------------------------------
---------------------------------------------------------------------------
No. of Repeats|Total Score|Length  |Diagonal| BW-From|   BW-To|   Level
             3|     114.90|      27|     202|    1734|    1760|       8
---------------------------------------------------------------------------
 1734- 1760 (50.23/28.48)	GFGP......GLAMET.ALKSPD..RPECIRLYTPP
 1934- 1961 (42.30/22.73)	GRST......TLNMQTpQLNTPQ..DTSCTHILVFP
 1981- 2011 (22.37/ 8.27)	AFNPnndgadGMGIFD.LLDTGDdlDPDIINI....
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Explaination for Stockholm format
  The  "Stockholm" format is a system for marking up features in a multiple alignment. These mark-up annotations are preceded by a 'magic' label, of which there are four types. The Stockholm format is used by HMMER, Pfam, and Belvu. Mark-up lines include any characters except whitespace. Underscore ("_") is used instead of space. 

 #=GR (seqname) PP (Generic per-Sequence AND per-Column markup, exactly 1 char per column) where PP is Posterior Probability  [0-9*], (0=0.00-0.05; 1=0.05-0.15; *=0.95-1.00) 
 
 #=GC PP_cons line is Stockholm-format consensus posterior probability annotation for the entire column.  It’s calculated simply as the arithmetic mean of the per-residue posterior probabilities in that column.  This should prove useful in phylogenetic inference applications, for example, where it’s common to mask away non confidently aligned columns of a multiple alignment. The PP_cons line provides an objective measure of the confidence assigned to each column.
 
 #=GC RF line is Stockholm-format reference coordinate annotation, with an x marking each column that the profile considered to be consensus.





Alignment of MDP31385 with Med13 domain of Kingdom Metazoa
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